Protein protein interaction and database

Protein–protein interaction

Def-

Protein–protein interactions (PPIs) are the physical contacts of high specificity 

established between two or more protein molecules as a result of biochemical events steered by 

electrostatic forces including the hydrophobic effect. 

Proteins have to interact with each other to carry out biochemical functions. Thus, 

mapping out protein–protein interactions is another important aspect of proteomics. Inter protein 

interactions include strong interactions that allow formation of stable complexes and weaker 

ones that exist transiently. Proteins involved in forming complexes are generally more tightly co 

regulated in expression than those involved in transient interactions.

Protein–protein interaction Database:-

To make this information more readily available, a number of publicly available

databases have set out to collect and store protein–protein interaction data. Protein–protein

interactions have been retrieved from major databases, integrated and the results compared.

 BIND - Biomolecular Interaction Network Database

 BioGRID- A Biological General Repository for Interaction Datasets (Samuel Lunenfeld

Research Institute)

 DIP - Database of Interacting Proteins

 IntAct molecular interaction database: a central, standards-compliant repository of

molecular interactions, including protein–protein, protein– small molecule and protein–

nucleic acid interactions.

 STRING: STRING is a database of known and predicted protein-protein interactions.

(EMBL)

 MINT: Molecular Interaction database

 PRIDE- PRoteomics IDEntifications database

 HPRD- the Human Protein Reference Database

 MIPS- The Munich Information Center for Protein Sequences

.

BIND - The Biomolecular Interaction Network Database (http://bind.ca)

- The Biomolecular Interaction Network Database (BIND: http://bind.ca) archives

biomolecular interaction, complex and pathway information.

- A web based system is available to query, view and submit records.

- BIND continues to grow with the addition of individual submissions as well as interaction

data from the PDB and a number of large-scale interaction and complex mapping

experiments using yeast two hybrid, mass spectrometry, genetic interactions and phage

display.

We have developed a new graphical analysis tool that provides users with a view of the

domain composition of proteins in interaction and complex records to help relate functional

domains to protein interactions.

- An interaction network clustering tool has also been developed to help focus on regions of

interest.

- Continued input from users has helped further mature the BIND data specification, which

now includes the ability to store detailed information about genetic interactions.

- The BIND data specification is available as ASN.1 and XML DTD.